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pipeline:viper:sxviper

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pipeline:viper:sxviper [2018/08/22 11:46]
fmerino 		pipeline:viper:sxviper [2019/04/02 10:52]
lusnig [See also]
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 ~~NOTOC~~ ~~NOTOC~~
  
-===== sxviper =====+===== sp_viper =====
 Initial 3D Model - VIPER: //ab initio// 3D structure determination using Validation of Individual Parameter Reproducibility (VIPER). Determines a validated initial model using a small set of class averages produced by [[pipeline:isac:sxisac2|ISAC2]]. Initial 3D Model - VIPER: //ab initio// 3D structure determination using Validation of Individual Parameter Reproducibility (VIPER). Determines a validated initial model using a small set of class averages produced by [[pipeline:isac:sxisac2|ISAC2]].
  
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 Usage in command line Usage in command line
  
-  sxviper.py stack  directory  --radius=outer_radius  --sym=sym  --moon_elimination=moon_elimination  --ir=inner_radius  --rs=ring_step  --xr=x_range  --yr=y_range  --ts=translational_search_step  --delta=angular_step  --center=center_type  --maxit1=max_iter1  --maxit2=max_iter2  --mask3D=mask3D  --L2threshold=L2threshold  --ref_a=ref_a  --nruns=nruns  --doga=doga  --fl=fl  --aa=aa  --pwreference=pwreference  --debug+  sp_viper.py stack  directory  --radius=outer_radius  --sym=sym  --moon_elimination=moon_elimination  --ir=inner_radius  --rs=ring_step  --xr=x_range  --yr=y_range  --ts=translational_search_step  --delta=angular_step  --center=center_type  --maxit1=max_iter1  --maxit2=max_iter2  --mask3D=mask3D  --L2threshold=L2threshold  --ref_a=ref_a  --nruns=nruns  --doga=doga  --fl=fl  --aa=aa  --pwreference=pwreference  --debug
  
 \\ \\
 ===== Typical usage ===== ===== Typical usage =====
  
-sxrviper exists only in MPI version.+sp_rviper exists only in MPI version.
  
-  mpirun --npernode 16 -np 24 --host node1,node2 sxviper.py  stack output_directory --fl=0.25 --radius=30 --xr=2 --moon_elimination=750,4.84+  mpirun --npernode 16 -np 24 --host node1,node2 sp_viper.py  stack output_directory --fl=0.25 --radius=30 --xr=2 --moon_elimination=750,4.84
  
 A faster version using restricted ranges of parameters. A faster version using restricted ranges of parameters.
  
-  mpirun --npernode 16 -np 16 --host node1 sxviper.py  stack output_directory --fl=0.25 --radius=30 --xr=1 --nruns=2   --L2threshold=1.0e300  --doga=-1+  mpirun --npernode 16 -np 16 --host node1 sp_viper.py  stack output_directory --fl=0.25 --radius=30 --xr=1 --nruns=2   --L2threshold=1.0e300  --doga=-1
  
 The VIPER program exists only in MPI version.  Number of MPI processes **must be** a multiple of %%--%%nruns (default = 6).  The VIPER program exists only in MPI version.  Number of MPI processes **must be** a multiple of %%--%%nruns (default = 6). 
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 ==== Files ==== ==== Files ====
-sparx/bin/sxviper.py+sparx/bin/sp_viper.py
  
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 ==== See also ==== ==== See also ====
-[[pipeline:isac:sxisac2|sxisac2]] and [[pipeline:viper:sxrviper|sxrviper]]+[[pipeline:isac:sxisac2|sp_isac2]] and [[pipeline:viper:sxrviper|sp_rviper]]
  
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pipeline/viper/sxviper.txt ยท Last modified: 2019/04/02 10:52 by lusnig

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